Tutorials

These tutorial pages suppose you are comfortable with the basic concepts of MEG/EEG analysis and source imaging. If you're not, we encourage you to read some background literature.
To get a quick overview of the software interface, you can watch this introduction video.
If you are looking for the old tutorials, they are still available ?here.

Get started

The easiest way to get started with Brainstorm is to read and follow carefully these introduction tutorials. The number between brackets represents the number of printed pages for each tutorial. All in one page.
Some sections are still being edited or under review: Editing process.

Starting a new study     1. Create a new protocol [9]     2. Import the subject anatomy [8]     3. Explore the anatomy [13] Reviewing     4. Channel file / MRI registration [11]     5. Continuous recordings [9]     6. Multiple windows [5]     7. Event markers [10] Pre-processing     8. Stimulation delays [9]     9. Select files / Run processes [11]     10. Power spectrum / Frequency filters [15]     11. Bad channels [6]     12. Artifact detection [8]     13. Artifact cleaning with SSP [16]     14. Additional bad segments [7]

Epoching and averaging     15. Import epochs [9]     16. Average response [7]     17. Visual exploration [10]     18. Colormaps [5]     19. Clusters of sensors [4] Source modeling     20. Head model [9]     21. Noise/data covariance [7]     22. Source estimation [28] [TODO]     23. Scouts [17] Advanced processing     24. Time-frequency [33]     25. Difference [13]     26. Statistics [30]     27. Workflows [10]     28. Scripting [31]

Other analysis scenarios

EEG and epilepsy MEG visual: single subject (Elekta) MEG visual: group study (Elekta) MEG current phantom (CTF) MEG current phantom (Elekta)

MEG median nerve (Elekta) MEG median nerve (Yokogawa) MEG median nerve (CTF) NIRS finger tapping [TODO]

Advanced tutorials

Anatomy and registration Brainstorm coordinate systems FreeSurfer, BrainSuite, BrainVISA, CIVET Using the anatomy templates Group analysis: Subjects coregistration Warping default anatomy [TODO] Digitize EEG electrodes and head shape Real-time head positioning in the CTF MEG Recordings Montage editor [TODO] SSP cookbook Detect subject movements Synchronization with eye tracker Software How to cite Brainstorm [TODO] Known bugs

Source modeling BEM with OpenMEEG Volume source estimation [TODO] Deep cerebral structures [TODO] Dipoles: Scanning and importing [TODO] Dipoles: FieldTrip dipole fitting Maximum entropy on the mean (MEM) Beamforming methods [TODO] Advanced processing How to write your own process [TODO] Decoding conditions (MVPA) Microstate segmentation with CENA Phase-amplitude coupling: Method [TODO] Phase-amplitude coupling: Example [TODO] Functional connectivity [TODO] Export volume sources to SPM8/SPM12 Export surface sources to SPM12

Background readings

These tutorial pages suppose you are comfortable with the basic concepts of MEG and EEG source imaging. If you're not, we engage you to read some background information, which will quickly help you getting up to speed with this field:

• Canada MEG consortium: Basics of MEG
  A non-technical overview of MEG and EEG, with an emphasis on source modeling.

• MEG: An Introduction to Methods
  Editors: P Hansen, M Kringelbach, R Salmelin, Oxford University Press, 2010, 448 pages.

• The Oxford Handbook of Social Neuroscience
  Editors: J Decety, JT Cacioppo, Oxford University Press, 2011, 1128 pages
  A draft version of the MEG chapter by Sylvain Baillet can be found here.

• Good practice for conducting and reporting MEG research, Gross et al, Neuroimage, 2013.

• Slides from a selection of educational courses: megcommunity.org

• We can also come and organize a training session at your institution, or visit us at the MNI.

Now you are well equipped to go through the software tutorial, Enjoy!